www.neuron.yale.edu

Hello,

I have a hoc-file of a neuron. The is no difference between tha basal and apical dendrites. But I want to know, which dendrites are basal and with are apical. Is there any posibiilty finding out this in NEURON.


strdef neuron_name
neuron_name = "j8"
create a1_1
a1_1 { //dendrite
pt3dclear()
pt3dadd(9.5,-43.6,2.8,3.5)
pt3dadd(9.6,-43.4,6.2,3.5)
pt3dadd(9.4,-44.7,8.5,2.5)
}
create a1_11
a1_11 { //dendrite
pt3dclear()
pt3dadd(9.4,-44.7,8.5,2.5)
pt3dadd(10.4,-45,10.8,2)
pt3dadd(11.7,-44.7,14.2,2)
pt3dadd(12,-44.8,16.8,2)
pt3dadd(12.2,-44.9,19.5,2)
}
......

Bring up a shape plot of the model cell and look at it (or ask an anatomist
to look at it).
NEURON Main Menu / Graph / Shape plot
If you need to discover the name of a section, use
NEURON Main Menu / Tools / Distributed Mechanisms / Viewers / Shape name
If you click on a section in this tool's shape plot, it will turn red, and the
name of the section will be highlighted in the tool's list of section names (you
may have to drag the scroll bar up & down to find the section's name). And
if you click on one of the section names in the list, the corresponding section
will turn red in the shape plot.